GSM7049365: RNA-Seq_Caulobacter_crescentus_NA1000(WT)+Nal_rep1; Caulobacter vibrioides; RNA-Seq
Cells were lysed in a Ready-Lyse lysozyme solution (Epicentre Technologies) according to manufacturer's instructions and lysates were homogenized through QiaShredder columns (Qiagen, Switzerland). The RNeasy Mini Kit (Qiagen, Switzerland) was used for total RNA extraction according to the manufacturer's protocol which included a first DNase treatment using the On-column DNase I digestion kit (Qiagen, Switzerland). Extracted total RNA was subjected to a second DNase treatment using Promega RQ1 at 1 unit/μg of RNA. Another total RNA cleanup was performed after the DNase treatment. The RNA concentration was measured using a Nanodrop 1000 spectrophotometer (ThermoScientific, USA) and RNA quality was assessed using a 2100 Bioanalyzer Instrument (Agilent Technologies, USA). RNA-Seq library preparation and sequencing was performed at Fasteris SA (Geneva, Switzerland). Bacterial rRNA were removed from each total RNA samples and RNA-Seq libraries were prepared using the Ovation Complete Prokaryotic RNA-Seq library system kit according to the manufacturer's instructions. Single-end runs were performed on an Illumina NextSeq 500 instrument (50 cycles), yielding several million reads (stored as fastq files).